data_3NIB # _model_server_result.job_id WdNfLYYc7oJY7aK-C5v4Fg _model_server_result.datetime_utc '2024-10-20 03:54:01' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3nib # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":278}' # _entry.id 3NIB # _exptl.entry_id 3NIB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 3NIB _cell.length_a 112.194 _cell.length_b 112.194 _cell.length_c 74.807 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NIB _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_554 -x,-x+y,-z-2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -49.871333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 54 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 20 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 235 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 201 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.035 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 3NIB _atom_sites.fract_transf_matrix[1][1] 0.008913 _atom_sites.fract_transf_matrix[1][2] 0.005146 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010292 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.013368 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 NHE A 1 276 1 NHE NHE . C 3 GOL A 1 277 1 GOL GOL . D 3 GOL A 1 278 1 GOL GOL . E 4 HOH A 1 279 1 HOH HOH . E 4 HOH A 2 280 2 HOH HOH . E 4 HOH A 3 281 3 HOH HOH . E 4 HOH A 4 282 4 HOH HOH . E 4 HOH A 5 283 5 HOH HOH . E 4 HOH A 6 284 6 HOH HOH . E 4 HOH A 7 285 7 HOH HOH . E 4 HOH A 8 286 8 HOH HOH . E 4 HOH A 9 287 9 HOH HOH . E 4 HOH A 10 288 10 HOH HOH . E 4 HOH A 11 289 11 HOH HOH . E 4 HOH A 12 290 12 HOH HOH . E 4 HOH A 13 291 13 HOH HOH . E 4 HOH A 14 292 14 HOH HOH . E 4 HOH A 15 293 15 HOH HOH . E 4 HOH A 16 294 16 HOH HOH . E 4 HOH A 17 295 17 HOH HOH . E 4 HOH A 18 296 18 HOH HOH . E 4 HOH A 19 297 19 HOH HOH . E 4 HOH A 20 298 20 HOH HOH . E 4 HOH A 21 299 21 HOH HOH . E 4 HOH A 22 300 22 HOH HOH . E 4 HOH A 23 301 23 HOH HOH . E 4 HOH A 24 302 24 HOH HOH . E 4 HOH A 25 303 25 HOH HOH . E 4 HOH A 26 304 26 HOH HOH . E 4 HOH A 27 305 27 HOH HOH . E 4 HOH A 28 306 28 HOH HOH . E 4 HOH A 29 307 29 HOH HOH . E 4 HOH A 30 308 30 HOH HOH . E 4 HOH A 31 309 31 HOH HOH . E 4 HOH A 32 310 32 HOH HOH . E 4 HOH A 33 311 33 HOH HOH . E 4 HOH A 34 312 34 HOH HOH . E 4 HOH A 35 313 35 HOH HOH . E 4 HOH A 36 314 36 HOH HOH . E 4 HOH A 37 315 37 HOH HOH . E 4 HOH A 38 316 38 HOH HOH . E 4 HOH A 39 317 39 HOH HOH . E 4 HOH A 40 318 40 HOH HOH . E 4 HOH A 41 319 41 HOH HOH . E 4 HOH A 42 320 42 HOH HOH . E 4 HOH A 43 321 43 HOH HOH . E 4 HOH A 44 322 44 HOH HOH . E 4 HOH A 45 323 45 HOH HOH . E 4 HOH A 46 324 46 HOH HOH . E 4 HOH A 47 325 47 HOH HOH . E 4 HOH A 48 326 48 HOH HOH . E 4 HOH A 49 327 49 HOH HOH . E 4 HOH A 50 328 50 HOH HOH . E 4 HOH A 51 329 51 HOH HOH . E 4 HOH A 52 330 52 HOH HOH . E 4 HOH A 53 331 53 HOH HOH . E 4 HOH A 54 332 54 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 GOL . . . D 3 50.996 -46.479 -25.483 1 91.04 ? C1 GOL 278 A 1 HETATM 2 O O1 GOL . . . D 3 52.376 -46.357 -25.849 1 94.61 ? O1 GOL 278 A 1 HETATM 3 C C2 GOL . . . D 3 50.144 -46.526 -26.747 1 86.93 ? C2 GOL 278 A 1 HETATM 4 O O2 GOL . . . D 3 50.552 -47.65 -27.529 1 83.02 ? O2 GOL 278 A 1 HETATM 5 C C3 GOL . . . D 3 48.667 -46.662 -26.361 1 90.98 ? C3 GOL 278 A 1 HETATM 6 O O3 GOL . . . D 3 48.46 -47.869 -25.616 1 92.19 ? O3 GOL 278 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 46 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 396 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 6 #